Recombination rates across porcine autosomes inferred from high-density linkage maps
Recombination rates across porcine autosomes inferred from high-density linkage maps
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DOI：
10.1111/j.1365-2052.2011.02301.x
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发表时间：
2012-10-01
期刊：
影响因子：
2.4
通讯作者：
Fernandez, A. I.
中科院分区：
文献类型：
--
作者：
Munoz, M.;Alves, E.;Fernandez, A. I.
对基因组中重组率变化的研究提供了对进化基因组学的更好理解，也是绘制和解剖家畜复杂性状的重要一步。随着猪基因组序列的完成和高密度猪单核苷酸多态性（SNP）阵列的可用性，现在可以构建高密度猪连锁图谱并估计整个基因组的重组率。采用猪SNP 60微珠芯片对总共416只动物进行基因分型，并采用CRI-MAP构建高密度染色体连锁图谱，假设Sscrofa 10组装的物理顺序。该连锁图的总长度为2018.79 cM，使用658个减数分裂和14个类似于503个SNPs。猪常染色体的估计平均重组率为0.86，与cM/Mb相似。然而，染色体之间的重组率有很大的差异。每条染色体的平均重组率（cM/Mb）从SSC 1的0.48到SSC 10的1.48，与染色体大小呈显著负相关。此外，采用1 Mb滑动窗口对重组率变化的分析使我们能够证明染色体内重组率的变化。一般来说，在染色体的末端观察到的重组率比在染色体的中心观察到的重组率大。最后，还推断了雌性和雄性重组率之间的比率，获得了1.38的值，其中异配子性别具有最少的重组。
Studies of the variation in recombination rate across the genome provide a better understanding of evolutionary genomics and are also an important step towards mapping and dissecting complex traits in domestic animals. With the recent completion of the porcine genome sequence and the availability of a high-density porcine single nucleotide polymorphism (SNP) array, it is now possible to construct a high-density porcine linkage map and estimate recombination rate across the genome. A total of 416 animals were genotyped with the Porcine SNP60BeadChip, and high-density chromosome linkage maps were constructed using CRI-MAP, assuming the physical order of the Sscrofa10 assembly. The total linkage map length was 2018.79 similar to cM, using 658 meioses and 14 similar to 503 SNPs. The estimated average recombination rate across the porcine autosomes was 0.86 similar to cM/Mb. However, a large variation in recombination rate was observed among chromosomes. The estimated average recombination rates (cM/Mb) per chromosome ranged from 0.48 in SSC1 to 1.48 in SSC10, displaying a significant negative correlation with the chromosome sizes. In addition, the analysis of the variation in the recombination rates taking 1-Mb sliding windows has allowed us to demonstrate the variation in recombination rates within chromosomes. In general, a larger recombination rate was observed in the extremes than in the centre of the chromosome. Finally, the ratio between female and male recombination rates was also inferred, obtaining a value of 1.38, with the heterogametic sex having the least recombination.